# WARNING: this file is not sorted! # db id alt consensus E-value adj_p-value log_adj_p-value bin_location bin_width total_width sites_in_bin total_sites p_success p-value mult_tests 1 RGGTTCTAGRBY MEME-1 RGGTTCTAGRBY 9.6e-194 1.3e-196 -451.05 0.0 85 489 434 585 0.17382 5.3e-199 244 2 GTTCYA DREME-1 GTTCTA 9.0e-123 1.2e-125 -287.63 0.0 83 495 302 441 0.16768 4.9e-128 247 2 AGAACM DREME-2 AGAACC 4.0e-088 5.4e-091 -207.85 0.0 87 495 267 429 0.17576 2.2e-093 247 2 CTAGAKC DREME-3 CTAGAKC 1.6e-015 2.2e-018 -40.66 0.0 92 494 74 136 0.18623 8.9e-021 246 3 M0433_1.02 (ZBTB12)_(Mus_musculus)_(DBD_1.00) NYCTAGAACN 6.1e-164 8.3e-167 -382.42 0.0 83 491 407 598 0.16904 3.4e-169 245 3 M0610_1.02 TET1 NNYRCGYWN 3.3e0000 4.4e-003 -5.42 0.0 236 492 235 402 0.47967 1.8e-005 245 3 M4569_1.02 HSF1 GTCSYGGGTTCGADTCCC 2.1e-002 2.9e-005 -10.46 0.0 73 483 71 254 0.15114 1.2e-007 241 3 M5567_1.02 HSF4 GAANVTTCYAGAA 7.6e-019 1.0e-021 -48.33 0.0 86 488 181 490 0.17623 4.2e-024 243 3 M5568_1.02 HSFY2 TTCGAAHVRTTCGAA 2.6e0000 3.5e-003 -5.66 0.0 8 486 20 398 0.01646 1.4e-005 242 3 M5974_1.02 ZNF524 GGGTTCRAGGGT 5.6e-016 7.6e-019 -41.72 0.0 101 489 173 423 0.20654 3.1e-021 244 3 M6287_1.02 HSF2 VGAABRTTCTAGAA 6.9e-035 9.4e-038 -85.26 0.0 75 487 220 578 0.15400 3.9e-040 243 3 M6397_1.02 NR6A1 TGAMCTTGAMCTT 8.4e0000 1.1e-002 -4.48 0.0 78 488 92 387 0.15984 4.7e-005 243 3 M6436_1.02 PGR DACAGRNTGTTCY 4.6e0000 6.2e-003 -5.09 0.0 46 488 83 558 0.09426 2.5e-005 243 3 M6542_1.02 ZBTB6 VGRTGATRGAGCC 1.9e-002 2.5e-005 -10.59 0.0 176 488 255 542 0.36066 1.0e-007 243 ## # Detailed descriptions of columns in this file: # # db: The name of the database (file name) that contains the motif. # id: A name for the motif that is unique in the motif database file. # alt: An alternate name of the motif that may be provided # in the motif database file. # consensus: A consensus sequence computed from the motif. # E-value: The expected number motifs that would have least one. # region as enriched for best matches to the motif as the reported region. # The E-value is the p-value multiplied by the number of motifs in the # input database(s). # adj_p-value: The probability that any tested region would be as enriched for # best matches to this motif as the reported region is. # By default the p-value is calculated by using the one-tailed binomial # test on the number of sequences with a match to the motif # that have their best match in the reported region, corrected for # the number of regions and score thresholds tested. # The test assumes that the probability that the best match in a sequence # falls in the region is the region width divided by the # number of places a motif # can align in the sequence (sequence length minus motif width plus 1). # When CentriMo is run in discriminative mode with a negative # set of sequences, the p-value of a region is calculated # using the Fisher exact test on the # enrichment of best matches in the positive sequences relative # to the negative sequences, corrected # for the number of regions and score thresholds tested. # The test assumes that the probability that the best match (if any) # falls into a given region # is the same for all positive and negative sequences. # log_adj_p-value: Log of adjusted p-value. # bin_location: Location of the center of the most enriched region. # bin_width: The width (in sequence positions) of the most enriched region. # A best match to the motif is counted as being in the region if the # center of the motif falls in the region. # total_width: The window maximal size which can be reached for this motif: # rounded(sequence length - motif length +1)/2 # sites_in_bin: The number of (positive) sequences whose best match to the motif # falls in the reported region. # Note: This number may be less than the number of # (positive) sequences that have a best match in the region. # The reason for this is that a sequence may have many matches that score # equally best. # If n matches have the best score in a sequence, 1/n is added to the # appropriate bin for each match. # total_sites: The number of sequences containing a match to the motif # above the score threshold. # p_success: The probability of falling in the enriched window: # bin width / total width # p-value: The uncorrected p-value before it gets adjusted to the # number of multiple tests to give the adjusted p-value. # mult_tests: This is the number of multiple tests (n) done for this motif. # It was used to correct the original p-value of a region for # multiple tests using the formula: # p' = 1 - (1-p)^n where p is the uncorrected p-value. # The number of multiple tests is the number of regions # considered times the number of score thresholds considered. # It depends on the motif length, sequence length, and the type of # optimizations being done (central enrichment, local enrichment, # score optimization).